miRNA: 3'- gcUGGG-----CGCaGUCCAUUCuGAGGGGa -5'
miRNA: 3'- gCUGGg-----CGCAGUCCau---UCuGAGGGGa -5'
miRNA: 3'- gcuGGGCG--CAGUCCauu---CUGAGGGGA- -5'
miRNA: 3'- gcuGGGCG--CAGUCCauu---CUGAGGGGA- -5'
miRNA: 3'- -GCUGGGCGCAGUCCAUUCUGAGGGGA- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 24412 | 5' | -57.5 | NC_005264.1 | + | 974 | 0.68 | 0.759292 |
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Target: 5'- -aGCCCcugggGCGgCAGGUGGGcCUCCCCc -3' miRNA: 3'- gcUGGG-----CGCaGUCCAUUCuGAGGGGa -5' |
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| 24412 | 5' | -57.5 | NC_005264.1 | + | 61363 | 0.68 | 0.759292 |
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Target: 5'- uGGCCgucaaaGCGUCGGGgucgcGGuCUCCCCg -3' miRNA: 3'- gCUGGg-----CGCAGUCCau---UCuGAGGGGa -5' |
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| 24412 | 5' | -57.5 | NC_005264.1 | + | 37813 | 0.71 | 0.63194 |
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Target: 5'- --cCCCGCccGUCGGGgccgacGACUCCCCUu -3' miRNA: 3'- gcuGGGCG--CAGUCCauu---CUGAGGGGA- -5' |
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| 24412 | 5' | -57.5 | NC_005264.1 | + | 156839 | 0.71 | 0.63194 |
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Target: 5'- --cCCCGCccGUCGGGgccgacGACUCCCCUu -3' miRNA: 3'- gcuGGGCG--CAGUCCauu---CUGAGGGGA- -5' |
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| 24412 | 5' | -57.5 | NC_005264.1 | + | 105458 | 1.07 | 0.003456 |
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Target: 5'- uCGACCCGCGUCAGGUAAGACUCCCCUc -3' miRNA: 3'- -GCUGGGCGCAGUCCAUUCUGAGGGGA- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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